Author

Nathan D Maulding

University of California, Santa CruzORCID 0000-0002-8175-4538Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Cancer Biology· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 3 Organism:human· 3 Research Focus:database / resource· 2 Research Focus:gene regulatory network inference· 2 Assay:scRNA-seq· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Joshua M. StuartiD· 3 shared Alastair Charles Fyfe· 1 shared Alexander T. PearsoniD· 1 shared Angie S. HinrichsiD· 1 shared Ann S. Zweig· 1 shared Arjun Arkal RaoiD· 1 shared Brian J. RaneyiD· 1 shared Brian T. LeeiD· 1 shared

Activity by Year

2020-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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3 shared papersBioinformatics

Joshua M. StuartORCID

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Author profile →

4 papers

Recent·Most cited

Transformer-based modeling of Clonal Selection and Expression Dynamics (TraCSED) reveals resistance signatures in breast cancer

Nathan D Maulding, Jun Zou, Wei Zhou, Ciara Metcalfe, Joshua M. Stuart, Xin Ye, Marc A. Hafner

TraCSED identifies resistance pathways in breast cancer by analyzing scRNA-seq data and clonal selection dynamics over time.

npj Systems Biology and Applications · Jan 10, 2025Peer-reviewedCancer Biology

Associating Transcription Factors to Single-Cell Trajectories with DREAMIT

Nathan D Maulding, Lucas Seninge, Joshua M. Stuart

DREAMIT identifies transcription factor activity patterns along single-cell trajectories, showing improved tissue-specific performance over existing methods.

bioRxiv · Jun 8, 2023 · PreprintBioinformatics

Dual RNA-Seq analysis of SARS-CoV-2 correlates specific human transcriptional response pathways directly to viral expression

Nathan D Maulding, Spencer T. Seiler, Alexander T. Pearson, Nicholas Kreusser, Joshua M. Stuart

This study uses dual RNA-seq to analyze co-regulation of human and SARS-CoV-2 genes, identifying tissue-specific expression patterns and potential therapeutic targets.

Scientific Reports · Jan 25, 2022Peer-reviewedBioinformatics

The UCSC SARS-CoV-2 Genome Browser

Jason D. Fernandes, Angie S. Hinrichs, Hiram Clawson, Jairo Navarro Gonzalez, Brian T. Lee, Luis R Nassar, Brian J. Raney, Kate R. Rosenbloom, Santrupti Nerli, Arjun Arkal Rao, Daniel Schmelter, Alastair Charles Fyfe, Nathan D Maulding, Ann S. Zweig, Todd M. Lowe, , Maximilian Haeussler

The paper describes a SARS-CoV-2 genome browser that integrates molecular data from multiple sources for visualization and analysis.

Nature Genetics · Sep 9, 2020Peer-reviewedGenomics